Category: research

  • Python not suitable platform for reproducible research

    Python not suitable platform for reproducible research

    While [Active Papers] has achieved its mission of demonstrating that unifying computational reproducibility and provenance tracking is doable and useful, it has also demonstrated that Python is not a suitable platform to build on for reproducible research. Breaking changes at all layers of the software stack are too frequent. Konrad Hinsen in Archiving Active Papers…

  • Why did my breeding values go down?

    Why did my breeding values go down?

    At first, the question may sound strange. You have been collecting data, running analyses using various acronyms (PBLUP, GBLUP, HBLUP, …), in a univariate/multivariate fashion, using ad-hoc or commercial software (asreml-R, Bolt, …), generating a long list of numbers sorted from highest to lowest.  The list was uploaded to a website (or a printed catalogue)…

  • I am a sucker… for interesting problems

    I am a sucker… for interesting problems

    As a child and as a young person I moved a lot (schools, cities, countries). On one side it gave me plenty of interesting experiences; on the other, a weird sense of belonging and facing racism. Later, I started moving a lot less to the point that I’ve been working almost 18 years for the…

  • Big blob thesis OR chapter = publication?

    Big blob thesis OR chapter = publication?

    I have a PhD student that should be submitting by approximately Christmas time, so the last week has been a lot of reading and editing. Three chapters, which will eventually become articles, are now “thesis ready”, meaning they may need minor polish before submission but they are ready for external thesis evaluation. As a supervisor,…

  • Are we working with a model organism?

    Are we working with a model organism?

    There are organisms that are highly popular in research, like fruit flies or mice in animals,Arabidopsis or poplars in plants. There are very good reasons to work with those species (model organisms), as there are very good reasons not to work with them. If you work in primary production—cereals, veggies, fruits, animals, or trees as…